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    Syndig1l synapse differentiation inducing 1-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685882, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Syndig1lprovided by RGD
    Official Full Name
    synapse differentiation inducing 1-likeprovided by RGD
    Primary source
    RGD:1589004
    See related
    EnsemblRapid:ENSRNOG00000027645 AllianceGenome:RGD:1589004
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Tmem90a
    Summary
    Predicted to be located in Golgi apparatus. Predicted to be active in intracellular membrane-bounded organelle and membrane. Orthologous to human SYNDIG1L (synapse differentiation inducing 1 like). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 30.7) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Syndig1l in Genome Data Viewer
    Location:
    6q31
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (110053713..110076058, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (104318096..104344989, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (108392837..108415187, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene vertebrae development associated Neighboring gene U6 spliceosomal RNA Neighboring gene U11 spliceosomal RNA Neighboring gene NPC intracellular cholesterol transporter 2 Neighboring gene iron-sulfur cluster assembly 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Capucin: a novel striatal marker down-regulated in rodent models of Huntington disease. de Chaldée M, et al. Genomics, 2006 Feb. PMID 16359841
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    synapse differentiation-inducing gene protein 1-like
    Names
    capucin
    transmembrane protein 90A

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001109485.1 → NP_001102955.1  synapse differentiation-inducing gene protein 1-like

      See identical proteins and their annotated locations for NP_001102955.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473982
      UniProtKB/TrEMBL
      A6JDY1, D4A4K5
      Related
      ENSRNOP00000030389.4, ENSRNOT00000031650.6
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 218
      CD225; Interferon-induced transmembrane protein

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      110053713..110076058 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240353.5 → XP_006240415.1  synapse differentiation-inducing gene protein 1-like isoform X1

      See identical proteins and their annotated locations for XP_006240415.1

      UniProtKB/TrEMBL
      A6JDY1, D4A4K5
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 218
      CD225; Interferon-induced transmembrane protein

    2. XM_017594357.3 → XP_017449846.1  synapse differentiation-inducing gene protein 1-like isoform X1

      UniProtKB/TrEMBL
      A6JDY1, D4A4K5
      Conserved Domains (1) summary
      pfam04505
      Location:156 → 218
      CD225; Interferon-induced transmembrane protein
    Nucleotide Protein Strain
    Heading Accession and Version

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